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Update output paths

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This commit is contained in:
drpatelh 2020-08-07 09:32:03 +01:00
parent 268c56c20d
commit 754fad7c8e
1 changed files with 7 additions and 7 deletions
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14
software/fastqc/test/main.nf
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@ -2,7 +2,7 @@
nextflow.enable.dsl = 2 nextflow.enable.dsl = 2
params.outdir = "results/" params.outdir = "output/"
params.publish_dir_mode = "copy" params.publish_dir_mode = "copy"
params.conda = false params.conda = false
@ -13,11 +13,11 @@ include { FASTQC } from '../main.nf'
*/ */
workflow test_single_end { workflow test_single_end {
def reads = [] def input = []
reads = [ [ id:'test', single_end:true ], input = [ [ id:'test', single_end:true ],
[ file('input/test_single_end.fastq.gz', checkIfExists: true) ] ] [ file('input/test_single_end.fastq.gz', checkIfExists: true) ] ]
FASTQC ( reads, [:] ) FASTQC ( input, [ publish_dir:'test_single_end' ] )
} }
/* /*
@ -25,11 +25,11 @@ workflow test_single_end {
*/ */
workflow test_paired_end { workflow test_paired_end {
def reads = [] def input = []
reads = [ [ id:'test', single_end:false ], input = [ [ id:'test', single_end:false ],
[ file('input/test_R1.fastq.gz', checkIfExists: true), file('input/test_R2.fastq.gz', checkIfExists: true) ] ] [ file('input/test_R1.fastq.gz', checkIfExists: true), file('input/test_R2.fastq.gz', checkIfExists: true) ] ]
FASTQC ( reads, [:] ) FASTQC ( input, [ publish_dir:'test_paired_end' ] )
} }
workflow { workflow {